Parameters Input values
Folder name : Example data
Sequence name : CDH1
Group : High methylated DNA
Experiment type : Direct-BSP
Replicate number : 1
Date of sequencing #1 : 2022-05-02
Date of sequencing #2 : 2022-05-02
Date of analysis : 2023-04-29 18:12
Prefix of output files : CDH1_High methylated DNA_1

Reference DNA

Reference DNA sequence

Reference DNA sequence information Input values
Name CDH1
Strand used for primer design Plus strand
Length 341 pb
Coordinates on reference genome chr16:68770940-68771280

Genomic DNA Sequence from plus strand (template strand):

## CCACCGGCGGGGCTGGGATTCGAACCCAGTGGAATCAGAACCGTGCAGGTCCCATAACCCACCTAGACCCTAGCAACTCCAGGCTAGAGGGTCACCGCGTCTATGCGAGGCCGGGTGGGCGGGCCGTCAGCTCCGCCCTGGGGAGGGGTCCGCGCTGCTGATTGGCTGTGGCCGGCAGGTGAACCCTCAGCCAATCAGCGGTACGGGGGGCGGTGCCTCCGGGGCTCACCTGGCTGCAGCCACGCACCCCCTCTCAGTGGCGTCGGAACTGCAAAGCACCTGTGAGCTTGCGGAAGTCAGTTCAGACTCCAGCCCGCTCCAGCCCGGCCCGACCCGACCGC

Genomic DNA Sequence from minus strand (not used):

## GCGGTCGGGTCGGGCCGGGCTGGAGCGGGCTGGAGTCTGAACTGACTTCCGCAAGCTCACAGGTGCTTTGCAGTTCCGACGCCACTGAGAGGGGGTGCGTGGCTGCAGCCAGGTGAGCCCCGGAGGCACCGCCCCCCGTACCGCTGATTGGCTGAGGGTTCACCTGCCGGCCACAGCCAATCAGCAGCGCGGACCCCTCCCCAGGGCGGAGCTGACGGCCCGCCCACCCGGCCTCGCATAGACGCGGTGACCCTCTAGCCTGGAGTTGCTAGGGTCTAGGTGGGTTATGGGACCTGCACGGTTCTGATTCCACTGGGTTCGAATCCCAGCCCCGCCGGTGG

Localization of CG dinucleotides

CG positions on plus strand

CG number chr start end C position G position
1 chr16 68770944 68770945 5 6
2 chr16 68770947 68770948 8 9
3 chr16 68770960 68770961 21 22
4 chr16 68770981 68770982 42 43
5 chr16 68771035 68771036 96 97
6 chr16 68771037 68771038 98 99
7 chr16 68771045 68771046 106 107
8 chr16 68771051 68771052 112 113
9 chr16 68771059 68771060 120 121
10 chr16 68771064 68771065 125 126
11 chr16 68771073 68771074 134 135
12 chr16 68771090 68771091 151 152
13 chr16 68771092 68771093 153 154
14 chr16 68771112 68771113 173 174
15 chr16 68771138 68771139 199 200
16 chr16 68771143 68771144 204 205
17 chr16 68771150 68771151 211 212
18 chr16 68771159 68771160 220 221
19 chr16 68771182 68771183 243 244
20 chr16 68771200 68771201 261 262
21 chr16 68771203 68771204 264 265
22 chr16 68771230 68771231 291 292
23 chr16 68771254 68771255 315 316
24 chr16 68771264 68771265 325 326
25 chr16 68771269 68771270 330 331
26 chr16 68771274 68771275 335 336
27 chr16 68771278 68771279 339 340

CG positions on minus strand

CG number chr start end C position G position
27 chr16 68771278 68771279 2 3
26 chr16 68771274 68771275 6 7
25 chr16 68771269 68771270 11 12
24 chr16 68771264 68771265 16 17
23 chr16 68771254 68771255 26 27
22 chr16 68771230 68771231 50 51
21 chr16 68771203 68771204 77 78
20 chr16 68771200 68771201 80 81
19 chr16 68771182 68771183 98 99
18 chr16 68771159 68771160 121 122
17 chr16 68771150 68771151 130 131
16 chr16 68771143 68771144 137 138
15 chr16 68771138 68771139 142 143
14 chr16 68771112 68771113 168 169
13 chr16 68771092 68771093 188 189
12 chr16 68771090 68771091 190 191
11 chr16 68771073 68771074 207 208
10 chr16 68771064 68771065 216 217
9 chr16 68771059 68771060 221 222
8 chr16 68771051 68771052 229 230
7 chr16 68771045 68771046 235 236
6 chr16 68771037 68771038 243 244
5 chr16 68771035 68771036 245 246
4 chr16 68770981 68770982 299 300
3 chr16 68770960 68770961 320 321
2 chr16 68770947 68770948 333 334
1 chr16 68770944 68770945 336 337

Bisulfite converted sequences

Converted sequence sense (template strand)

Bisulfite converted sequence of the plus strand as indicated as the template strand.

## TTATCGGCGGGGTTGGGATTCGAATTTAGTGGAATTAGAATCGTGTAGGTTTTATAATTTATTTAGATTTTAGTAATTTTAGGTTAGAGGGTTATCGCGTTTATGCGAGGTCGGGTGGGCGGGTCGTTAGTTTCGTTTTGGGGAGGGGTTCGCGTTGTTGATTGGTTGTGGTCGGTAGGTGAATTTTTAGTTAATTAGCGGTACGGGGGGCGGTGTTTTCGGGGTTTATTTGGTTGTAGTTACGTATTTTTTTTTAGTGGCGTCGGAATTGTAAAGTATTTGTGAGTTTGCGGAAGTTAGTTTAGATTTTAGTTCGTTTTAGTTCGGTTCGATTCGATCGT

Converted sequence antisense (reverse complement)

Reverse complement of the bisulfite converted sequence from the plus strand.

## ACGATCGAATCGAACCGAACTAAAACGAACTAAAATCTAAACTAACTTCCGCAAACTCACAAATACTTTACAATTCCGACGCCACTAAAAAAAAATACGTAACTACAACCAAATAAACCCCGAAAACACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAAATCTAAATAAATTATAAAACCTACACGATTCTAATTCCACTAAATTCGAATCCCAACCCCGCCGATAA

Sequencing trimming

Summary

Thresholds Values
Minimum length of the trimmed sequence : 30 bp
Minimum Phred quality score : 30
Minimum ratio of primary peak : 0.75
Minimum percentage of non-mixed positions : 75 %
Sequencing Length Start position End position Mean of Phred quality scores Mean of primary peak ratio Percentage of non-mixed positions Trimmed sequence quality
#1 81 48 128 38.58 0.82 72.84 Incorrect
#2 213 10 222 46.38 0.95 93.90 Correct

Sequencing result #1

Raw sequence

Sequence

Sequence of primary peaks:

Length: 354 bp 

## TAATTTAGAGTTCGTAGTAGACGATATTGCGATATGCGAAGTCGGGTGGGCGGGTCGTTAGTTTCGTTATGGGGAGGGGTTCGCGTTGTTGATTGGTTGTGGTCGGTAGGTGAATTTTTAGTTAATTAGCGGTACGGGGGGCGGTGTTTTCGGGGTTTATTTGGTTGTAGTTACGTATTTTTTTTTAGTGGCGTCGGAATTGTAAAGTATTTGTGAGTTTCCTCGACTGTGCCTACTAATGAATGNCTGTCGGACGTAAATCACGCTCNCAANGANANANGAGAAANCTTCATTTACTAATGAATCCCCCTTCTAGATTNAANAGTGCGATANCCATCCCTANTACNATACCCC
Chromatogram

Open chromatogram file in a new tab

Table
Position A peak T peak G peak C peak Total A ratio T ratio G ratio C ratio Primary base Quality score Primary ratio
1 17 36 6 0 59 0.29 0.61 0.10 0.00 T 2 0.61
2 75 53 16 18 162 0.46 0.33 0.10 0.11 A 3 0.46
3 61 47 0 26 134 0.46 0.35 0.00 0.19 A 6 0.46
4 1 60 0 27 88 0.01 0.68 0.00 0.31 T 5 0.68
5 0 73 0 26 99 0.00 0.74 0.00 0.26 T 5 0.74
6 39 60 0 26 125 0.31 0.48 0.00 0.21 T 4 0.48
7 63 36 0 25 124 0.51 0.29 0.00 0.20 A 5 0.51
8 45 0 321 20 386 0.12 0.00 0.83 0.05 G 11 0.83
9 18 0 0 17 35 0.51 0.00 0.00 0.49 A 4 0.51
10 13 0 204 14 231 0.06 0.00 0.88 0.06 G 13 0.88
11 6 54 0 14 74 0.08 0.73 0.00 0.19 T 5 0.73
12 13 32 1 20 66 0.20 0.48 0.02 0.30 T 5 0.48
13 0 0 0 33 33 0.00 0.00 0.00 1.00 C 5 1.00
14 0 0 1352 64 1416 0.00 0.00 0.95 0.05 G 5 0.95
15 6252 13676 0 5 19933 0.31 0.69 0.00 0.00 T 6 0.69
16 3453 0 3 0 3456 1.00 0.00 0.00 0.00 A 4 1.00
17 0 0 4062 12 4074 0.00 0.00 1.00 0.00 G 27 1.00
18 0 3644 0 36 3680 0.00 0.99 0.00 0.01 T 5 0.99
19 2419 0 0 0 2419 1.00 0.00 0.00 0.00 A 5 1.00
20 0 0 918 5 923 0.00 0.00 0.99 0.01 G 7 0.99
21 2700 55 0 0 2755 0.98 0.02 0.00 0.00 A 22 0.98
22 0 39 0 69 108 0.00 0.36 0.00 0.64 C 10 0.64
23 126 32 2602 0 2760 0.05 0.01 0.94 0.00 G 19 0.94
24 168 0 0 45 213 0.79 0.00 0.00 0.21 A 5 0.79
25 0 1194 58 54 1306 0.00 0.91 0.04 0.04 T 5 0.91
26 1112 0 57 30 1199 0.93 0.00 0.05 0.03 A 9 0.93
27 0 982 21 0 1003 0.00 0.98 0.02 0.00 T 15 0.98
28 108 739 0 499 1346 0.08 0.55 0.00 0.37 T 10 0.55
29 0 0 983 0 983 0.00 0.00 1.00 0.00 G 12 1.00
30 120 42 0 376 538 0.22 0.08 0.00 0.70 C 8 0.70
31 0 0 429 0 429 0.00 0.00 1.00 0.00 G 11 1.00
32 574 0 1 25 600 0.96 0.00 0.00 0.04 A 16 0.96
33 74 662 7 24 767 0.10 0.86 0.01 0.03 T 13 0.86
34 384 0 375 40 799 0.48 0.00 0.47 0.05 A 9 0.48
35 0 471 0 0 471 0.00 1.00 0.00 0.00 T 12 1.00
36 263 0 426 0 689 0.38 0.00 0.62 0.00 G 13 0.62
37 259 4 0 410 673 0.38 0.01 0.00 0.61 C 12 0.61
38 0 37 352 8 397 0.00 0.09 0.89 0.02 G 11 0.89
39 403 0 0 17 420 0.96 0.00 0.00 0.04 A 16 0.96
40 225 0 221 10 456 0.49 0.00 0.48 0.02 A 9 0.49
41 0 169 465 11 645 0.00 0.26 0.72 0.02 G 21 0.72
42 27 410 1 0 438 0.06 0.94 0.00 0.00 T 15 0.94
43 32 169 1 467 669 0.05 0.25 0.00 0.70 C 15 0.70
44 16 2 337 0 355 0.05 0.01 0.95 0.00 G 15 0.95
45 12 112 333 9 466 0.03 0.24 0.71 0.02 G 12 0.71
46 13 0 308 15 336 0.04 0.00 0.92 0.04 G 8 0.92
47 0 238 0 7 245 0.00 0.97 0.00 0.03 T 21 0.97
48 130 2 692 44 868 0.15 0.00 0.80 0.05 G 36 0.80
49 23 103 279 5 410 0.06 0.25 0.68 0.01 G 26 0.68
50 24 115 226 1 366 0.07 0.31 0.62 0.00 G 12 0.62
51 0 82 3 337 422 0.00 0.19 0.01 0.80 C 24 0.80
52 32 0 366 132 530 0.06 0.00 0.69 0.25 G 24 0.69
53 3 3 302 81 389 0.01 0.01 0.78 0.21 G 14 0.78
54 0 99 164 0 263 0.00 0.38 0.62 0.00 G 9 0.62
55 13 241 2 160 416 0.03 0.58 0.00 0.38 T 10 0.58
56 10 0 31 443 484 0.02 0.00 0.06 0.92 C 27 0.92
57 68 32 242 0 342 0.20 0.09 0.71 0.00 G 11 0.71
58 29 229 1 107 366 0.08 0.63 0.00 0.29 T 11 0.63
59 0 422 2 0 424 0.00 1.00 0.00 0.00 T 26 1.00
60 293 21 222 0 536 0.55 0.04 0.41 0.00 A 15 0.55
61 0 71 200 30 301 0.00 0.24 0.66 0.10 G 10 0.66
62 7 260 101 41 409 0.02 0.64 0.25 0.10 T 16 0.64
63 12 383 1 117 513 0.02 0.75 0.00 0.23 T 24 0.75
64 8 326 0 0 334 0.02 0.98 0.00 0.00 T 25 0.98
65 7 73 0 439 519 0.01 0.14 0.00 0.85 C 38 0.85
66 5 0 209 25 239 0.02 0.00 0.87 0.10 G 18 0.87
67 32 208 2 123 365 0.09 0.57 0.01 0.34 T 11 0.57
68 47 429 0 19 495 0.09 0.87 0.00 0.04 T 13 0.87
69 508 321 1 40 870 0.58 0.37 0.00 0.05 A 12 0.58
70 133 331 3 41 508 0.26 0.65 0.01 0.08 T 11 0.65
71 0 4 479 0 483 0.00 0.01 0.99 0.00 G 19 0.99
72 245 1 250 14 510 0.48 0.00 0.49 0.03 G 13 0.49
73 2 6 266 93 367 0.01 0.02 0.72 0.25 G 13 0.72
74 8 0 274 19 301 0.03 0.00 0.91 0.06 G 16 0.91
75 461 24 0 1 486 0.95 0.05 0.00 0.00 A 49 0.95
76 21 3 260 28 312 0.07 0.01 0.83 0.09 G 30 0.83
77 56 14 366 1 437 0.13 0.03 0.84 0.00 G 59 0.84
78 1 0 327 0 328 0.00 0.00 1.00 0.00 G 34 1.00
79 2 0 343 2 347 0.01 0.00 0.99 0.01 G 34 0.99
80 0 329 3 2 334 0.00 0.99 0.01 0.01 T 18 0.99
81 9 383 8 129 529 0.02 0.72 0.02 0.24 T 24 0.72
82 15 0 3 648 666 0.02 0.00 0.00 0.97 C 34 0.97
83 0 62 240 0 302 0.00 0.21 0.79 0.00 G 12 0.79
84 3 76 0 487 566 0.01 0.13 0.00 0.86 C 30 0.86
85 39 120 393 87 639 0.06 0.19 0.62 0.14 G 24 0.62
86 0 380 16 0 396 0.00 0.96 0.04 0.00 T 38 0.96
87 69 398 4 39 510 0.14 0.78 0.01 0.08 T 40 0.78
88 92 23 385 26 526 0.17 0.04 0.73 0.05 G 38 0.73
89 48 229 44 28 349 0.14 0.66 0.13 0.08 T 35 0.66
90 58 359 0 0 417 0.14 0.86 0.00 0.00 T 48 0.86
91 45 0 370 13 428 0.11 0.00 0.86 0.03 G 50 0.86
92 371 32 26 26 455 0.82 0.07 0.06 0.06 A 59 0.82
93 5 294 3 0 302 0.02 0.97 0.01 0.00 T 49 0.97
94 24 376 5 41 446 0.05 0.84 0.01 0.09 T 62 0.84
95 4 14 572 16 606 0.01 0.02 0.94 0.03 G 62 0.94
96 1 18 222 7 248 0.00 0.07 0.90 0.03 G 59 0.90
97 15 217 2 15 249 0.06 0.87 0.01 0.06 T 62 0.87
98 6 353 22 0 381 0.02 0.93 0.06 0.00 T 62 0.93
99 12 0 430 18 460 0.03 0.00 0.93 0.04 G 62 0.93
100 0 235 8 35 278 0.00 0.85 0.03 0.13 T 59 0.85
101 36 0 478 0 514 0.07 0.00 0.93 0.00 G 62 0.93
102 42 10 256 47 355 0.12 0.03 0.72 0.13 G 59 0.72
103 1 209 6 25 241 0.00 0.87 0.02 0.10 T 51 0.87
104 0 24 6 381 411 0.00 0.06 0.01 0.93 C 62 0.93
105 34 38 212 6 290 0.12 0.13 0.73 0.02 G 59 0.73
106 18 38 261 11 328 0.05 0.12 0.80 0.03 G 59 0.80
107 4 195 3 1 203 0.02 0.96 0.01 0.00 T 59 0.96
108 298 0 2 23 323 0.92 0.00 0.01 0.07 A 62 0.92
109 0 2 165 17 184 0.00 0.01 0.90 0.09 G 51 0.90
110 30 6 315 12 363 0.08 0.02 0.87 0.03 G 56 0.87
111 34 213 6 0 253 0.13 0.84 0.02 0.00 T 51 0.84
112 8 3 380 39 430 0.02 0.01 0.88 0.09 G 59 0.88
113 319 21 5 51 396 0.81 0.05 0.01 0.13 A 59 0.81
114 253 30 16 50 349 0.72 0.09 0.05 0.14 A 51 0.72
115 0 282 28 21 331 0.00 0.85 0.08 0.06 T 56 0.85
116 12 415 27 21 475 0.03 0.87 0.06 0.04 T 56 0.87
117 1 309 1 0 311 0.00 0.99 0.00 0.00 T 62 0.99
118 7 305 0 0 312 0.02 0.98 0.00 0.00 T 62 0.98
119 7 247 13 9 276 0.03 0.89 0.05 0.03 T 59 0.89
120 282 3 0 39 324 0.87 0.01 0.00 0.12 A 59 0.87
121 14 1 134 1 150 0.09 0.01 0.89 0.01 G 43 0.89
122 31 215 28 10 284 0.11 0.76 0.10 0.04 T 56 0.76
123 19 266 22 38 345 0.06 0.77 0.06 0.11 T 59 0.77
124 226 4 14 0 244 0.93 0.02 0.06 0.00 A 43 0.93
125 199 4 0 16 219 0.91 0.02 0.00 0.07 A 37 0.91
126 0 212 0 33 245 0.00 0.87 0.00 0.13 T 36 0.87
127 25 330 3 60 418 0.06 0.79 0.01 0.14 T 36 0.79
128 278 23 1 2 304 0.91 0.08 0.00 0.01 A 44 0.91
129 4 8 91 37 140 0.03 0.06 0.65 0.26 G 17 0.65
130 22 26 6 176 230 0.10 0.11 0.03 0.77 C 46 0.77
131 35 0 281 6 322 0.11 0.00 0.87 0.02 G 59 0.87
132 11 0 208 0 219 0.05 0.00 0.95 0.00 G 46 0.95
133 21 196 3 0 220 0.10 0.89 0.01 0.00 T 49 0.89
134 247 0 0 25 272 0.91 0.00 0.00 0.09 A 51 0.91
135 6 59 7 227 299 0.02 0.20 0.02 0.76 C 49 0.76
136 39 0 187 26 252 0.15 0.00 0.74 0.10 G 43 0.74
137 13 41 279 14 347 0.04 0.12 0.80 0.04 G 51 0.80
138 10 9 194 16 229 0.04 0.04 0.85 0.07 G 56 0.85
139 13 0 233 17 263 0.05 0.00 0.89 0.06 G 59 0.89
140 1 38 224 1 264 0.00 0.14 0.85 0.00 G 59 0.85
141 14 29 234 35 312 0.04 0.09 0.75 0.11 G 59 0.75
142 9 0 8 199 216 0.04 0.00 0.04 0.92 C 50 0.92
143 27 26 267 4 324 0.08 0.08 0.82 0.01 G 56 0.82
144 46 5 208 1 260 0.18 0.02 0.80 0.00 G 50 0.80
145 0 183 7 1 191 0.00 0.96 0.04 0.01 T 49 0.96
146 34 2 385 17 438 0.08 0.00 0.88 0.04 G 59 0.88
147 13 177 22 8 220 0.06 0.80 0.10 0.04 T 56 0.80
148 6 262 0 7 275 0.02 0.95 0.00 0.03 T 54 0.95
149 14 228 9 2 253 0.06 0.90 0.04 0.01 T 28 0.90
150 14 225 0 4 243 0.06 0.93 0.00 0.02 T 24 0.93
151 92 32 0 245 369 0.25 0.09 0.00 0.66 C 11 0.66
152 0 105 227 28 360 0.00 0.29 0.63 0.08 G 13 0.63
153 217 132 405 59 813 0.27 0.16 0.50 0.07 G 23 0.50
154 241 122 444 85 892 0.27 0.14 0.50 0.10 G 23 0.50
155 0 0 484 55 539 0.00 0.00 0.90 0.10 G 26 0.90
156 79 220 0 35 334 0.24 0.66 0.00 0.10 T 18 0.66
157 48 212 0 12 272 0.18 0.78 0.00 0.04 T 18 0.78
158 20 190 2 18 230 0.09 0.83 0.01 0.08 T 19 0.83
159 276 0 21 12 309 0.89 0.00 0.07 0.04 A 49 0.89
160 3 168 1 14 186 0.02 0.90 0.01 0.08 T 49 0.90
161 33 216 16 0 265 0.12 0.82 0.06 0.00 T 56 0.82
162 25 205 14 44 288 0.09 0.71 0.05 0.15 T 50 0.71
163 37 4 269 31 341 0.11 0.01 0.79 0.09 G 56 0.79
164 0 11 152 14 177 0.00 0.06 0.86 0.08 G 39 0.86
165 61 138 15 0 214 0.29 0.64 0.07 0.00 T 43 0.64
166 25 217 12 8 262 0.10 0.83 0.05 0.03 T 51 0.83
167 0 0 265 24 289 0.00 0.00 0.92 0.08 G 56 0.92
168 0 103 0 48 151 0.00 0.68 0.00 0.32 T 34 0.68
169 183 1 27 11 222 0.82 0.00 0.12 0.05 A 51 0.82
170 13 19 95 5 132 0.10 0.14 0.72 0.04 G 27 0.72
171 14 134 0 30 178 0.08 0.75 0.00 0.17 T 46 0.75
172 17 179 5 7 208 0.08 0.86 0.02 0.03 T 46 0.86
173 162 35 0 4 201 0.81 0.17 0.00 0.02 A 46 0.81
174 0 0 5 212 217 0.00 0.00 0.02 0.98 C 49 0.98
175 16 40 127 4 187 0.09 0.21 0.68 0.02 G 40 0.68
176 8 143 2 41 194 0.04 0.74 0.01 0.21 T 43 0.74
177 193 25 6 31 255 0.76 0.10 0.02 0.12 A 51 0.76
178 0 158 6 20 184 0.00 0.86 0.03 0.11 T 43 0.86
179 42 188 12 7 249 0.17 0.76 0.05 0.03 T 46 0.76
180 63 156 12 3 234 0.27 0.67 0.05 0.01 T 36 0.67
181 37 187 4 10 238 0.16 0.79 0.02 0.04 T 48 0.79
182 23 196 16 6 241 0.10 0.81 0.07 0.02 T 50 0.81
183 41 189 21 15 266 0.15 0.71 0.08 0.06 T 50 0.71
184 0 189 10 32 231 0.00 0.82 0.04 0.14 T 43 0.82
185 18 181 0 27 226 0.08 0.80 0.00 0.12 T 40 0.80
186 19 177 12 8 216 0.09 0.82 0.06 0.04 T 39 0.82
187 125 46 4 38 213 0.59 0.22 0.02 0.18 A 23 0.59
188 22 11 77 20 130 0.17 0.08 0.59 0.15 G 13 0.59
189 30 107 29 1 167 0.18 0.64 0.17 0.01 T 28 0.64
190 43 1 219 3 266 0.16 0.00 0.82 0.01 G 28 0.82
191 0 30 78 29 137 0.00 0.22 0.57 0.21 G 26 0.57
192 1 17 25 121 164 0.01 0.10 0.15 0.74 C 35 0.74
193 14 25 92 34 165 0.08 0.15 0.56 0.21 G 27 0.56
194 36 116 12 17 181 0.20 0.64 0.07 0.09 T 43 0.64
195 0 33 7 162 202 0.00 0.16 0.03 0.80 C 50 0.80
196 38 26 64 0 128 0.30 0.20 0.50 0.00 G 23 0.50
197 35 26 104 24 189 0.19 0.14 0.55 0.13 G 24 0.55
198 147 0 11 32 190 0.77 0.00 0.06 0.17 A 34 0.77
199 99 32 14 57 202 0.49 0.16 0.07 0.28 A 24 0.49
200 3 104 11 45 163 0.02 0.64 0.07 0.28 T 27 0.64
201 31 169 17 0 217 0.14 0.78 0.08 0.00 T 35 0.78
202 0 11 145 36 192 0.00 0.06 0.76 0.19 G 34 0.76
203 51 57 5 39 152 0.34 0.38 0.03 0.26 T 19 0.38
204 91 1 10 0 102 0.89 0.01 0.10 0.00 A 13 0.89
205 109 0 15 0 124 0.88 0.00 0.12 0.00 A 18 0.88
206 97 46 6 0 149 0.65 0.31 0.04 0.00 A 20 0.65
207 47 56 80 5 188 0.25 0.30 0.43 0.03 G 12 0.43
208 48 119 2 0 169 0.28 0.70 0.01 0.00 T 23 0.70
209 140 48 16 7 211 0.66 0.23 0.08 0.03 A 23 0.66
210 13 120 3 35 171 0.08 0.70 0.02 0.20 T 30 0.70
211 38 138 7 0 183 0.21 0.75 0.04 0.00 T 34 0.75
212 23 132 26 21 202 0.11 0.65 0.13 0.10 T 43 0.65
213 0 26 157 23 206 0.00 0.13 0.76 0.11 G 43 0.76
214 6 79 34 33 152 0.04 0.52 0.22 0.22 T 31 0.52
215 43 15 124 2 184 0.23 0.08 0.67 0.01 G 34 0.67
216 158 6 25 14 203 0.78 0.03 0.12 0.07 A 43 0.78
217 16 26 76 51 169 0.09 0.15 0.45 0.30 G 19 0.45
218 1 159 12 46 218 0.00 0.73 0.06 0.21 T 43 0.73
219 19 142 1 40 202 0.09 0.70 0.00 0.20 T 43 0.70
220 13 146 6 13 178 0.07 0.82 0.03 0.07 T 51 0.82
221 7 33 24 129 193 0.04 0.17 0.12 0.67 C 34 0.67
222 2 17 10 143 172 0.01 0.10 0.06 0.83 C 37 0.83
223 7 92 24 28 151 0.05 0.61 0.16 0.19 T 30 0.61
224 52 2 20 135 209 0.25 0.01 0.10 0.65 C 39 0.65
225 5 20 73 15 113 0.04 0.18 0.65 0.13 G 13 0.65
226 94 0 40 36 170 0.55 0.00 0.24 0.21 A 10 0.55
227 3 20 37 96 156 0.02 0.13 0.24 0.62 C 10 0.62
228 6 118 55 4 183 0.03 0.64 0.30 0.02 T 18 0.64
229 6 89 231 6 332 0.02 0.27 0.70 0.02 G 34 0.70
230 41 106 40 13 200 0.20 0.53 0.20 0.06 T 12 0.53
231 0 13 117 73 203 0.00 0.06 0.58 0.36 G 12 0.58
232 21 50 47 97 215 0.10 0.23 0.22 0.45 C 11 0.45
233 7 108 0 130 245 0.03 0.44 0.00 0.53 C 10 0.53
234 74 144 30 3 251 0.29 0.57 0.12 0.01 T 10 0.57
235 190 128 11 93 422 0.45 0.30 0.03 0.22 A 10 0.45
236 48 40 32 138 258 0.19 0.16 0.12 0.53 C 10 0.53
237 82 86 22 19 209 0.39 0.41 0.11 0.09 T 10 0.41
238 241 25 4 25 295 0.82 0.08 0.01 0.08 A 34 0.82
239 138 22 27 3 190 0.73 0.12 0.14 0.02 A 21 0.73
240 7 32 20 9 68 0.10 0.47 0.29 0.13 T 10 0.47
241 6 2 26 23 57 0.11 0.04 0.46 0.40 G 13 0.46
242 40 22 0 23 85 0.47 0.26 0.00 0.27 A 8 0.47
243 197 3 24 0 224 0.88 0.01 0.11 0.00 A 46 0.88
244 41 42 11 8 102 0.40 0.41 0.11 0.08 T 13 0.41
245 0 14 36 9 59 0.00 0.24 0.61 0.15 G 8 0.61
246 6 13 20 22 61 0.10 0.21 0.33 0.36 N 8 0.36
247 12 1 0 43 56 0.21 0.02 0.00 0.77 C 16 0.77
248 24 36 23 8 91 0.26 0.40 0.25 0.09 T 11 0.40
249 1 0 14 0 15 0.07 0.00 0.93 0.00 G 13 0.93
250 29 31 1 21 82 0.35 0.38 0.01 0.26 T 10 0.38
251 0 0 11 23 34 0.00 0.00 0.32 0.68 C 8 0.68
252 7 10 16 2 35 0.20 0.29 0.46 0.06 G 7 0.46
253 1 4 15 2 22 0.05 0.18 0.68 0.09 G 6 0.68
254 31 0 0 14 45 0.69 0.00 0.00 0.31 A 22 0.69
255 0 10 6 11 27 0.00 0.37 0.22 0.41 C 8 0.41
256 5 6 28 11 50 0.10 0.12 0.56 0.22 G 9 0.56
257 1 14 5 7 27 0.04 0.52 0.19 0.26 T 7 0.52
258 38 7 0 5 50 0.76 0.14 0.00 0.10 A 9 0.76
259 32 0 14 30 76 0.42 0.00 0.18 0.39 A 13 0.42
260 37 29 0 14 80 0.46 0.36 0.00 0.17 A 13 0.46
261 26 78 27 0 131 0.20 0.60 0.21 0.00 T 34 0.60
262 0 19 25 47 91 0.00 0.21 0.27 0.52 C 16 0.52
263 61 0 13 0 74 0.82 0.00 0.18 0.00 A 23 0.82
264 25 27 0 40 92 0.27 0.29 0.00 0.43 C 13 0.43
265 10 0 38 21 69 0.14 0.00 0.55 0.30 G 21 0.55
266 7 13 6 43 69 0.10 0.19 0.09 0.62 C 24 0.62
267 14 15 6 0 35 0.40 0.43 0.17 0.00 T 10 0.43
268 0 0 17 33 50 0.00 0.00 0.34 0.66 C 27 0.66
269 18 15 16 12 61 0.30 0.25 0.26 0.20 N 10 0.30
270 0 0 9 24 33 0.00 0.00 0.27 0.73 C 14 0.73
271 12 9 8 0 29 0.41 0.31 0.28 0.00 A 5 0.41
272 26 8 14 0 48 0.54 0.17 0.29 0.00 A 16 0.54
273 9 10 14 32 65 0.14 0.15 0.22 0.49 N 18 0.49
274 1 0 14 1 16 0.06 0.00 0.88 0.06 G 11 0.88
275 26 7 6 25 64 0.41 0.11 0.09 0.39 A 13 0.41
276 36 29 11 14 90 0.40 0.32 0.12 0.16 N 9 0.40
277 62 26 0 16 104 0.60 0.25 0.00 0.15 A 11 0.60
278 65 17 48 27 157 0.41 0.11 0.31 0.17 N 13 0.41
279 83 3 69 57 212 0.39 0.01 0.33 0.27 A 13 0.39
280 67 52 69 35 223 0.30 0.23 0.31 0.16 N 13 0.31
281 81 0 96 23 200 0.41 0.00 0.48 0.12 G 18 0.48
282 80 1 51 0 132 0.61 0.01 0.39 0.00 A 14 0.61
283 27 25 42 0 94 0.29 0.27 0.45 0.00 G 15 0.45
284 46 0 36 22 104 0.44 0.00 0.35 0.21 A 13 0.44
285 29 5 25 0 59 0.49 0.08 0.42 0.00 A 9 0.49
286 31 0 25 5 61 0.51 0.00 0.41 0.08 A 13 0.51
287 16 12 19 20 67 0.24 0.18 0.28 0.30 N 8 0.30
288 10 17 0 55 82 0.12 0.21 0.00 0.67 C 21 0.67
289 0 23 0 17 40 0.00 0.58 0.00 0.42 T 12 0.58
290 16 17 0 11 44 0.36 0.39 0.00 0.25 T 11 0.39
291 14 7 0 20 41 0.34 0.17 0.00 0.49 C 13 0.49
292 32 14 5 2 53 0.60 0.26 0.09 0.04 A 16 0.60
293 3 19 3 2 27 0.11 0.70 0.11 0.07 T 10 0.70
294 9 56 4 2 71 0.13 0.79 0.06 0.03 T 34 0.79
295 0 38 3 0 41 0.00 0.93 0.07 0.00 T 23 0.93
296 30 1 3 18 52 0.58 0.02 0.06 0.35 A 26 0.58
297 0 11 6 22 39 0.00 0.28 0.15 0.56 C 17 0.56
298 13 14 10 0 37 0.35 0.38 0.27 0.00 T 11 0.38
299 30 6 0 9 45 0.67 0.13 0.00 0.20 A 11 0.67
300 30 0 11 0 41 0.73 0.00 0.27 0.00 A 20 0.73
301 1 35 0 7 43 0.02 0.81 0.00 0.16 T 13 0.81
302 8 0 34 1 43 0.19 0.00 0.79 0.02 G 11 0.79
303 37 0 18 1 56 0.66 0.00 0.32 0.02 A 18 0.66
304 17 0 4 0 21 0.81 0.00 0.19 0.00 A 10 0.81
305 21 23 0 18 62 0.34 0.37 0.00 0.29 T 18 0.37
306 22 0 4 32 58 0.38 0.00 0.07 0.55 C 18 0.55
307 0 14 2 23 39 0.00 0.36 0.05 0.59 C 11 0.59
308 2 23 4 25 54 0.04 0.43 0.07 0.46 C 13 0.46
309 9 0 12 33 54 0.17 0.00 0.22 0.61 C 26 0.61
310 0 22 11 23 56 0.00 0.39 0.20 0.41 C 9 0.41
311 5 21 0 0 26 0.19 0.81 0.00 0.00 T 9 0.81
312 20 23 3 2 48 0.42 0.48 0.06 0.04 T 12 0.48
313 1 0 0 44 45 0.02 0.00 0.00 0.98 C 14 0.98
314 16 37 1 16 70 0.23 0.53 0.01 0.23 T 9 0.53
315 35 0 4 6 45 0.78 0.00 0.09 0.13 A 16 0.78
316 1 9 20 3 33 0.03 0.27 0.61 0.09 G 8 0.61
317 33 1 8 20 62 0.53 0.02 0.13 0.32 A 8 0.53
318 15 34 7 13 69 0.22 0.49 0.10 0.19 T 10 0.49
319 15 33 2 0 50 0.30 0.66 0.04 0.00 T 11 0.66
320 15 18 7 23 63 0.24 0.29 0.11 0.37 N 11 0.37
321 18 0 15 11 44 0.41 0.00 0.34 0.25 A 18 0.41
322 19 9 0 19 47 0.40 0.19 0.00 0.40 A 12 0.40
323 30 18 11 11 70 0.43 0.26 0.16 0.16 N 15 0.43
324 17 0 4 13 34 0.50 0.00 0.12 0.38 A 13 0.50
325 8 0 10 8 26 0.31 0.00 0.38 0.31 G 8 0.38
326 0 32 0 8 40 0.00 0.80 0.00 0.20 T 10 0.80
327 0 7 25 19 51 0.00 0.14 0.49 0.37 G 9 0.49
328 17 14 0 34 65 0.26 0.22 0.00 0.52 C 10 0.52
329 11 4 31 11 57 0.19 0.07 0.54 0.19 G 9 0.54
330 25 6 9 3 43 0.58 0.14 0.21 0.07 A 12 0.58
331 14 19 17 2 52 0.27 0.37 0.33 0.04 T 8 0.37
332 18 16 0 11 45 0.40 0.36 0.00 0.24 A 10 0.40
333 21 20 17 19 77 0.27 0.26 0.22 0.25 N 13 0.27
334 0 2 10 28 40 0.00 0.05 0.25 0.70 C 16 0.70
335 11 16 3 26 56 0.20 0.29 0.05 0.46 C 11 0.46
336 29 1 16 15 61 0.48 0.02 0.26 0.25 A 16 0.48
337 0 42 0 5 47 0.00 0.89 0.00 0.11 T 34 0.89
338 18 0 15 24 57 0.32 0.00 0.26 0.42 C 18 0.42
339 0 0 11 36 47 0.00 0.00 0.23 0.77 C 23 0.77
340 13 3 15 23 54 0.24 0.06 0.28 0.43 C 13 0.43
341 27 33 11 4 75 0.36 0.44 0.15 0.05 T 23 0.44
342 22 14 0 6 42 0.52 0.33 0.00 0.14 A 11 0.52
343 19 12 16 13 60 0.32 0.20 0.27 0.22 N 9 0.32
344 0 40 3 0 43 0.00 0.93 0.07 0.00 T 17 0.93
345 23 0 11 0 34 0.68 0.00 0.32 0.00 A 10 0.68
346 25 29 0 32 86 0.29 0.34 0.00 0.37 C 8 0.37
347 10 19 8 9 46 0.22 0.41 0.17 0.20 N 8 0.41
348 36 0 0 21 57 0.63 0.00 0.00 0.37 A 10 0.63
349 0 39 8 14 61 0.00 0.64 0.13 0.23 T 10 0.64
350 27 25 0 4 56 0.48 0.45 0.00 0.07 A 5 0.48
351 4 16 3 41 64 0.06 0.25 0.05 0.64 C 10 0.64
352 18 0 0 39 57 0.32 0.00 0.00 0.68 C 21 0.68
353 8 5 7 38 58 0.14 0.09 0.12 0.66 C 27 0.66
354 17 10 0 26 53 0.32 0.19 0.00 0.49 C 13 0.49

Quality report

Trimming thresholds :

  • Trimming Method : M1
  • Minimum base error probability : 0.001 %
  • Minimum Phred quality score : 30
Raw sequence information Values
Raw sequence length : 354 bp
Mean of raw sequence Phred quality scores : 25.66
Quality report - Trimmed sequence information Values
Trimmed sequence length : 80 bp
Trimmed sequence start position : 48
Trimmed sequence end position : 128
Mean of trimmed sequence Phred quality scores : 38.61

Mixed base peak report

Trimming thresholds :

  • Minimum primary peak ratio for a position to be considered non-mixed : 0.75
  • Minimum of non-mixed positions percentage in the trimmed sequence to be considered non-mixed : 75 %
  • Minimum number of consecutive non-mixed positions at extremities to get a non-mixed positions percentage above threshold for the trimmed sequence (computed) : 3 bp
Raw sequence information Values
Raw sequence length : 354 bp
Mean of raw sequence primary peak ratios : 0.7
Percentage of non-mixed positions on raw sequence : 44.92 %
Mixed peak report - Trimmed sequence information Values
Trimmed sequence length : 171 bp
Trimmed sequence start position : 16
Trimmed sequence end position : 186
Mean of trimmed sequence primary peak ratios : 0.82
Percentage of non-mixed positions on trimmed sequence : 72.51 %

Trimming plot

Final trimmed sequence

Sequence

Warning: Trimmed sequence from the sequencing result #1 was found with insufficient length or insufficient quality and will not be used.

Final trimmed sequence information Values
Length : 81 bp
Start position : 48
End position : 128
Mean of Phred quality scores : 38.58
Mean of primary peak ratio : 0.82
Percentage of non-mixed positions : 72.84 %
Chromatogram
Table

Sequencing result #2

Raw sequence

Sequence

Sequence of primary peaks:

Length: 229 bp 

## AACTTAAATTCCATAGCCCTCTAACCTTAATTACTATACCCTCTTATTGAGGGTTAATTACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAACCCTTTAGTGAGGGTTAATTAACC
Chromatogram

Open chromatogram file in a new tab

Table
Position A peak T peak G peak C peak Total A ratio T ratio G ratio C ratio Primary base Quality score Primary ratio
1 1962 0 0 1563 3525 0.56 0.00 0.00 0.44 A 5 0.56
2 1821 750 0 0 2571 0.71 0.29 0.00 0.00 A 6 0.71
3 0 0 0 629 629 0.00 0.00 0.00 1.00 C 9 1.00
4 598 955 0 0 1553 0.39 0.61 0.00 0.00 T 14 0.61
5 0 1616 0 0 1616 0.00 1.00 0.00 0.00 T 15 1.00
6 2180 1335 0 3 3518 0.62 0.38 0.00 0.00 A 8 0.62
7 2077 0 0 608 2685 0.77 0.00 0.00 0.23 A 11 0.77
8 1917 3 0 0 1920 1.00 0.00 0.00 0.00 A 25 1.00
9 0 1177 0 0 1177 0.00 1.00 0.00 0.00 T 27 1.00
10 0 1642 0 0 1642 0.00 1.00 0.00 0.00 T 32 1.00
11 2 0 0 1482 1484 0.00 0.00 0.00 1.00 C 32 1.00
12 0 0 0 1200 1200 0.00 0.00 0.00 1.00 C 27 1.00
13 1114 1 321 0 1436 0.78 0.00 0.22 0.00 A 6 0.78
14 0 301 0 0 301 0.00 1.00 0.00 0.00 T 6 1.00
15 968 0 0 321 1289 0.75 0.00 0.00 0.25 A 6 0.75
16 0 0 406 0 406 0.00 0.00 1.00 0.00 G 8 1.00
17 0 0 0 1458 1458 0.00 0.00 0.00 1.00 C 10 1.00
18 0 0 0 1347 1347 0.00 0.00 0.00 1.00 C 23 1.00
19 0 1 0 1111 1112 0.00 0.00 0.00 1.00 C 39 1.00
20 0 1220 0 0 1220 0.00 1.00 0.00 0.00 T 41 1.00
21 490 0 0 959 1449 0.34 0.00 0.00 0.66 C 28 0.66
22 0 572 0 1 573 0.00 1.00 0.00 0.00 T 25 1.00
23 1323 1 0 0 1324 1.00 0.00 0.00 0.00 A 40 1.00
24 1158 0 0 0 1158 1.00 0.00 0.00 0.00 A 36 1.00
25 0 0 0 560 560 0.00 0.00 0.00 1.00 C 31 1.00
26 248 0 0 733 981 0.25 0.00 0.00 0.75 C 30 0.75
27 0 570 0 1 571 0.00 1.00 0.00 0.00 T 33 1.00
28 0 251 0 0 251 0.00 1.00 0.00 0.00 T 10 1.00
29 854 0 0 0 854 1.00 0.00 0.00 0.00 A 25 1.00
30 888 0 0 170 1058 0.84 0.00 0.00 0.16 A 27 0.84
31 0 653 0 0 653 0.00 1.00 0.00 0.00 T 43 1.00
32 0 1001 172 0 1173 0.00 0.85 0.15 0.00 T 30 0.85
33 952 0 0 1 953 1.00 0.00 0.00 0.00 A 31 1.00
34 0 1 0 648 649 0.00 0.00 0.00 1.00 C 47 1.00
35 110 569 0 0 679 0.16 0.84 0.00 0.00 T 28 0.84
36 675 0 0 317 992 0.68 0.00 0.00 0.32 A 15 0.68
37 389 485 0 2 876 0.44 0.55 0.00 0.00 T 15 0.55
38 1013 2 0 1 1016 1.00 0.00 0.00 0.00 A 41 1.00
39 0 0 0 1266 1266 0.00 0.00 0.00 1.00 C 46 1.00
40 250 0 0 738 988 0.25 0.00 0.00 0.75 C 31 0.75
41 0 1 0 834 835 0.00 0.00 0.00 1.00 C 45 1.00
42 0 800 0 0 800 0.00 1.00 0.00 0.00 T 45 1.00
43 0 0 0 269 269 0.00 0.00 0.00 1.00 C 22 1.00
44 343 1144 0 0 1487 0.23 0.77 0.00 0.00 T 23 0.77
45 529 817 0 0 1346 0.39 0.61 0.00 0.00 T 19 0.61
46 1325 0 0 0 1325 1.00 0.00 0.00 0.00 A 20 1.00
47 0 420 370 0 790 0.00 0.53 0.47 0.00 T 6 0.53
48 540 574 0 0 1114 0.48 0.52 0.00 0.00 T 6 0.52
49 209 0 659 0 868 0.24 0.00 0.76 0.00 G 20 0.76
50 1158 0 0 0 1158 1.00 0.00 0.00 0.00 A 30 1.00
51 2 0 1152 650 1804 0.00 0.00 0.64 0.36 G 19 0.64
52 0 0 1371 449 1820 0.00 0.00 0.75 0.25 G 17 0.75
53 0 0 882 559 1441 0.00 0.00 0.61 0.39 G 11 0.61
54 0 693 0 560 1253 0.00 0.55 0.00 0.45 T 15 0.55
55 0 643 541 0 1184 0.00 0.54 0.46 0.00 T 15 0.54
56 1363 2 0 0 1365 1.00 0.00 0.00 0.00 A 21 1.00
57 1317 1 0 0 1318 1.00 0.00 0.00 0.00 A 23 1.00
58 307 936 0 0 1243 0.25 0.75 0.00 0.00 T 22 0.75
59 0 2742 0 0 2742 0.00 1.00 0.00 0.00 T 23 1.00
60 4916 7 0 344 5267 0.93 0.00 0.00 0.07 A 16 0.93
61 160 0 0 459 619 0.26 0.00 0.00 0.74 C 11 0.74
62 2 0 0 569 571 0.00 0.00 0.00 1.00 C 25 1.00
63 0 0 627 12 639 0.00 0.00 0.98 0.02 G 49 0.98
64 0 0 0 637 637 0.00 0.00 0.00 1.00 C 50 1.00
65 0 0 0 887 887 0.00 0.00 0.00 1.00 C 53 1.00
66 0 0 0 828 828 0.00 0.00 0.00 1.00 C 53 1.00
67 0 0 0 910 910 0.00 0.00 0.00 1.00 C 54 1.00
68 0 0 0 823 823 0.00 0.00 0.00 1.00 C 55 1.00
69 0 0 0 708 708 0.00 0.00 0.00 1.00 C 58 1.00
70 0 0 736 0 736 0.00 0.00 1.00 0.00 G 58 1.00
71 0 412 0 0 412 0.00 1.00 0.00 0.00 T 41 1.00
72 653 0 0 0 653 1.00 0.00 0.00 0.00 A 51 1.00
73 1 0 0 737 738 0.00 0.00 0.00 1.00 C 51 1.00
74 0 0 0 691 691 0.00 0.00 0.00 1.00 C 58 1.00
75 0 0 820 25 845 0.00 0.00 0.97 0.03 G 58 0.97
76 0 0 0 542 542 0.00 0.00 0.00 1.00 C 51 1.00
77 0 625 0 1 626 0.00 1.00 0.00 0.00 T 51 1.00
78 609 0 0 0 609 1.00 0.00 0.00 0.00 A 58 1.00
79 701 0 0 0 701 1.00 0.00 0.00 0.00 A 58 1.00
80 0 585 0 0 585 0.00 1.00 0.00 0.00 T 61 1.00
81 0 831 0 0 831 0.00 1.00 0.00 0.00 T 58 1.00
82 747 1 0 0 748 1.00 0.00 0.00 0.00 A 51 1.00
83 508 0 0 0 508 1.00 0.00 0.00 0.00 A 51 1.00
84 1 0 0 497 498 0.00 0.00 0.00 1.00 C 51 1.00
85 3 600 0 0 603 0.00 1.00 0.00 0.00 T 58 1.00
86 745 1 0 0 746 1.00 0.00 0.00 0.00 A 58 1.00
87 572 0 0 0 572 1.00 0.00 0.00 0.00 A 58 1.00
88 560 0 0 0 560 1.00 0.00 0.00 0.00 A 58 1.00
89 369 0 0 0 369 1.00 0.00 0.00 0.00 A 51 1.00
90 610 0 0 0 610 1.00 0.00 0.00 0.00 A 41 1.00
91 1 683 0 0 684 0.00 1.00 0.00 0.00 T 51 1.00
92 0 865 0 2 867 0.00 1.00 0.00 0.00 T 58 1.00
93 1 2 0 737 740 0.00 0.00 0.00 1.00 C 58 1.00
94 401 0 0 18 419 0.96 0.00 0.00 0.04 A 58 0.96
95 0 0 0 621 621 0.00 0.00 0.00 1.00 C 51 1.00
96 0 3 0 737 740 0.00 0.00 0.00 1.00 C 58 1.00
97 2 679 0 3 684 0.00 0.99 0.00 0.00 T 58 0.99
98 816 1 0 2 819 1.00 0.00 0.00 0.00 A 58 1.00
99 2 0 0 659 661 0.00 0.00 0.00 1.00 C 58 1.00
100 0 0 5 625 630 0.00 0.00 0.01 0.99 C 46 0.99
101 3 0 807 3 813 0.00 0.00 0.99 0.00 G 46 0.99
102 959 0 2 0 961 1.00 0.00 0.00 0.00 A 46 1.00
103 1 0 0 671 672 0.00 0.00 0.00 1.00 C 58 1.00
104 1 0 0 650 651 0.00 0.00 0.00 1.00 C 58 1.00
105 274 0 0 8 282 0.97 0.00 0.00 0.03 A 58 0.97
106 3 0 0 603 606 0.00 0.00 0.00 1.00 C 58 1.00
107 494 0 0 2 496 1.00 0.00 0.00 0.00 A 58 1.00
108 541 0 0 2 543 1.00 0.00 0.00 0.00 A 58 1.00
109 0 0 0 636 636 0.00 0.00 0.00 1.00 C 58 1.00
110 1 0 0 677 678 0.00 0.00 0.00 1.00 C 58 1.00
111 561 0 0 0 561 1.00 0.00 0.00 0.00 A 58 1.00
112 579 7 0 0 586 0.99 0.01 0.00 0.00 A 58 0.99
113 2 545 0 0 547 0.00 1.00 0.00 0.00 T 58 1.00
114 2 0 0 789 791 0.00 0.00 0.00 1.00 C 58 1.00
115 522 0 0 2 524 1.00 0.00 0.00 0.00 A 58 1.00
116 502 0 0 2 504 1.00 0.00 0.00 0.00 A 58 1.00
117 16 0 0 505 521 0.03 0.00 0.00 0.97 C 58 0.97
118 582 0 0 2 584 1.00 0.00 0.00 0.00 A 58 1.00
119 526 0 0 2 528 1.00 0.00 0.00 0.00 A 58 1.00
120 2 0 9 577 588 0.00 0.00 0.02 0.98 C 51 0.98
121 0 0 658 13 671 0.00 0.00 0.98 0.02 G 51 0.98
122 0 0 24 626 650 0.00 0.00 0.04 0.96 C 58 0.96
123 8 0 315 0 323 0.02 0.00 0.98 0.00 G 51 0.98
124 731 0 1 0 732 1.00 0.00 0.00 0.00 A 41 1.00
125 900 0 0 0 900 1.00 0.00 0.00 0.00 A 58 1.00
126 0 0 0 731 731 0.00 0.00 0.00 1.00 C 51 1.00
127 0 0 0 989 989 0.00 0.00 0.00 1.00 C 58 1.00
128 0 0 0 987 987 0.00 0.00 0.00 1.00 C 58 1.00
129 0 21 0 814 835 0.00 0.03 0.00 0.97 C 58 0.97
130 0 781 0 37 818 0.00 0.95 0.00 0.05 T 58 0.95
131 0 0 0 1065 1065 0.00 0.00 0.00 1.00 C 58 1.00
132 0 0 0 892 892 0.00 0.00 0.00 1.00 C 58 1.00
133 0 0 0 838 838 0.00 0.00 0.00 1.00 C 58 1.00
134 0 0 0 696 696 0.00 0.00 0.00 1.00 C 58 1.00
135 582 0 0 3 585 0.99 0.00 0.00 0.01 A 58 0.99
136 618 0 0 0 618 1.00 0.00 0.00 0.00 A 61 1.00
137 758 0 0 0 758 1.00 0.00 0.00 0.00 A 58 1.00
138 716 0 0 0 716 1.00 0.00 0.00 0.00 A 51 1.00
139 0 0 2 528 530 0.00 0.00 0.00 1.00 C 51 1.00
140 154 0 522 0 676 0.23 0.00 0.77 0.00 G 34 0.77
141 712 0 0 0 712 1.00 0.00 0.00 0.00 A 58 1.00
142 873 0 0 0 873 1.00 0.00 0.00 0.00 A 51 1.00
143 595 0 0 2 597 1.00 0.00 0.00 0.00 A 58 1.00
144 1 13 0 577 591 0.00 0.02 0.00 0.98 C 58 0.98
145 13 656 0 2 671 0.02 0.98 0.00 0.00 T 58 0.98
146 856 2 0 0 858 1.00 0.00 0.00 0.00 A 58 1.00
147 688 0 0 0 688 1.00 0.00 0.00 0.00 A 58 1.00
148 0 0 30 579 609 0.00 0.00 0.05 0.95 C 58 0.95
149 31 0 694 2 727 0.04 0.00 0.95 0.00 G 58 0.95
150 795 0 2 7 804 0.99 0.00 0.00 0.01 A 58 0.99
151 0 0 0 751 751 0.00 0.00 0.00 1.00 C 58 1.00
152 0 0 0 911 911 0.00 0.00 0.00 1.00 C 58 1.00
153 0 0 0 873 873 0.00 0.00 0.00 1.00 C 58 1.00
154 0 0 740 30 770 0.00 0.00 0.96 0.04 G 58 0.96
155 0 0 2 715 717 0.00 0.00 0.00 1.00 C 58 1.00
156 0 0 0 1039 1039 0.00 0.00 0.00 1.00 C 51 1.00
157 0 0 0 830 830 0.00 0.00 0.00 1.00 C 58 1.00
158 574 0 0 38 612 0.94 0.00 0.00 0.06 A 51 0.94
159 2 0 0 826 828 0.00 0.00 0.00 1.00 C 51 1.00
160 0 0 0 871 871 0.00 0.00 0.00 1.00 C 58 1.00
161 0 0 2 837 839 0.00 0.00 0.00 1.00 C 51 1.00
162 136 0 681 3 820 0.17 0.00 0.83 0.00 G 32 0.83
163 1078 0 0 3 1081 1.00 0.00 0.00 0.00 A 58 1.00
164 1 0 0 725 726 0.00 0.00 0.00 1.00 C 58 1.00
165 0 11 0 849 860 0.00 0.01 0.00 0.99 C 58 0.99
166 0 694 0 47 741 0.00 0.94 0.00 0.06 T 51 0.94
167 0 0 0 1006 1006 0.00 0.00 0.00 1.00 C 51 1.00
168 0 0 498 37 535 0.00 0.00 0.93 0.07 G 51 0.93
169 8 0 0 510 518 0.02 0.00 0.00 0.98 C 51 0.98
170 587 17 0 0 604 0.97 0.03 0.00 0.00 A 58 0.97
171 47 578 0 0 625 0.08 0.92 0.00 0.00 T 58 0.92
172 895 0 0 0 895 1.00 0.00 0.00 0.00 A 58 1.00
173 679 0 0 0 679 1.00 0.00 0.00 0.00 A 58 1.00
174 477 0 0 1 478 1.00 0.00 0.00 0.00 A 51 1.00
175 0 0 7 628 635 0.00 0.00 0.01 0.99 C 51 0.99
176 0 0 588 30 618 0.00 0.00 0.95 0.05 G 58 0.95
177 0 0 27 706 733 0.00 0.00 0.04 0.96 C 58 0.96
178 127 0 557 0 684 0.19 0.00 0.81 0.00 G 32 0.81
179 748 2 2 0 752 0.99 0.00 0.00 0.00 A 51 0.99
180 50 515 0 0 565 0.09 0.91 0.00 0.00 T 58 0.91
181 824 0 0 0 824 1.00 0.00 0.00 0.00 A 58 1.00
182 629 0 0 0 629 1.00 0.00 0.00 0.00 A 58 1.00
183 2 0 0 814 816 0.00 0.00 0.00 1.00 C 58 1.00
184 0 0 0 985 985 0.00 0.00 0.00 1.00 C 58 1.00
185 0 11 0 810 821 0.00 0.01 0.00 0.99 C 58 0.99
186 0 723 0 57 780 0.00 0.93 0.00 0.07 T 58 0.93
187 0 19 0 898 917 0.00 0.02 0.00 0.98 C 58 0.98
188 6 545 0 2 553 0.01 0.99 0.00 0.00 T 34 0.99
189 863 0 0 0 863 1.00 0.00 0.00 0.00 A 58 1.00
190 615 0 0 2 617 1.00 0.00 0.00 0.00 A 58 1.00
191 0 0 0 675 675 0.00 0.00 0.00 1.00 C 58 1.00
192 0 3 0 768 771 0.00 0.00 0.00 1.00 C 58 1.00
193 95 542 0 2 639 0.15 0.85 0.00 0.00 T 34 0.85
194 846 0 0 0 846 1.00 0.00 0.00 0.00 A 58 1.00
195 610 0 0 0 610 1.00 0.00 0.00 0.00 A 61 1.00
196 603 0 0 0 603 1.00 0.00 0.00 0.00 A 58 1.00
197 668 9 0 0 677 0.99 0.01 0.00 0.00 A 58 0.99
198 3 750 0 0 753 0.00 1.00 0.00 0.00 T 58 1.00
199 14 853 0 0 867 0.02 0.98 0.00 0.00 T 58 0.98
200 819 3 0 2 824 0.99 0.00 0.00 0.00 A 58 0.99
201 3 3 0 654 660 0.00 0.00 0.00 0.99 C 58 0.99
202 137 514 0 0 651 0.21 0.79 0.00 0.00 T 34 0.79
203 877 2 0 0 879 1.00 0.00 0.00 0.00 A 58 1.00
204 620 0 0 0 620 1.00 0.00 0.00 0.00 A 58 1.00
205 467 0 0 100 567 0.82 0.00 0.00 0.18 A 34 0.82
206 2 0 0 700 702 0.00 0.00 0.00 1.00 C 58 1.00
207 0 0 0 883 883 0.00 0.00 0.00 1.00 C 58 1.00
208 0 25 0 748 773 0.00 0.03 0.00 0.97 C 58 0.97
209 0 804 0 0 804 0.00 1.00 0.00 0.00 T 58 1.00
210 0 1014 0 0 1014 0.00 1.00 0.00 0.00 T 51 1.00
211 186 717 0 0 903 0.21 0.79 0.00 0.00 T 32 0.79
212 747 2 0 0 749 1.00 0.00 0.00 0.00 A 58 1.00
213 7 120 536 0 663 0.01 0.18 0.81 0.00 G 29 0.81
214 0 446 321 0 767 0.00 0.58 0.42 0.00 T 25 0.58
215 30 0 530 0 560 0.05 0.00 0.95 0.00 G 41 0.95
216 600 0 292 0 892 0.67 0.00 0.33 0.00 A 25 0.67
217 1 0 799 0 800 0.00 0.00 1.00 0.00 G 46 1.00
218 0 0 1115 0 1115 0.00 0.00 1.00 0.00 G 51 1.00
219 0 3 758 0 761 0.00 0.00 1.00 0.00 G 51 1.00
220 0 620 0 0 620 0.00 1.00 0.00 0.00 T 50 1.00
221 203 599 0 0 802 0.25 0.75 0.00 0.00 T 31 0.75
222 896 2 0 0 898 1.00 0.00 0.00 0.00 A 47 1.00
223 767 179 0 0 946 0.81 0.19 0.00 0.00 A 29 0.81
224 46 1015 0 0 1061 0.04 0.96 0.00 0.00 T 23 0.96
225 862 2072 0 0 2934 0.29 0.71 0.00 0.00 T 23 0.71
226 4043 9 0 0 4052 1.00 0.00 0.00 0.00 A 20 1.00
227 397 0 0 0 397 1.00 0.00 0.00 0.00 A 30 1.00
228 0 0 3 5 8 0.00 0.00 0.38 0.62 C 10 0.62
229 0 0 2 5 7 0.00 0.00 0.29 0.71 C 8 0.71

Quality report

Trimming thresholds :

  • Trimming Method : M1
  • Minimum base error probability : 0.001 %
  • Minimum Phred quality score : 30
Raw sequence information Values
Raw sequence length : 229 bp
Mean of raw sequence Phred quality scores : 44.29
Quality report - Trimmed sequence information Values
Trimmed sequence length : 212 bp
Trimmed sequence start position : 10
Trimmed sequence end position : 222
Mean of trimmed sequence Phred quality scores : 46.45

Mixed base peak report

Trimming thresholds :

  • Minimum primary peak ratio for a position to be considered non-mixed : 0.75
  • Minimum of non-mixed positions percentage in the trimmed sequence to be considered non-mixed : 75 %
  • Minimum number of consecutive non-mixed positions at extremities to get a non-mixed positions percentage above threshold for the trimmed sequence (computed) : 3 bp
Raw sequence information Values
Raw sequence length : 229 bp
Mean of raw sequence primary peak ratios : 0.94
Percentage of non-mixed positions on raw sequence : 91.27 %
Mixed peak report - Trimmed sequence information Values
Trimmed sequence length : 218 bp
Trimmed sequence start position : 7
Trimmed sequence end position : 224
Mean of trimmed sequence primary peak ratios : 0.95
Percentage of non-mixed positions on trimmed sequence : 94.04 %

Trimming plot

Final trimmed sequence

Sequence
Final trimmed sequence information Values
Length : 213 bp
Start position : 10
End position : 222
Mean of Phred quality scores : 46.38
Mean of primary peak ratio : 0.95
Percentage of non-mixed positions : 93.9 %

Sequence of primary peaks:

## TCCATAGCCCTCTAACCTTAATTACTATACCCTCTTATTGAGGGTTAATTACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAACCCTTTAGTGAGGGTTA
Chromatogram

Open chromatogram file in a new tab

Table
Position A peak T peak G peak C peak Total A ratio T ratio G ratio C ratio Primary base Quality score Primary ratio
10 0 1642 0 0 1642 0.00 1.00 0.00 0.00 T 32 1.00
11 2 0 0 1482 1484 0.00 0.00 0.00 1.00 C 32 1.00
12 0 0 0 1200 1200 0.00 0.00 0.00 1.00 C 27 1.00
13 1114 1 321 0 1436 0.78 0.00 0.22 0.00 A 6 0.78
14 0 301 0 0 301 0.00 1.00 0.00 0.00 T 6 1.00
15 968 0 0 321 1289 0.75 0.00 0.00 0.25 A 6 0.75
16 0 0 406 0 406 0.00 0.00 1.00 0.00 G 8 1.00
17 0 0 0 1458 1458 0.00 0.00 0.00 1.00 C 10 1.00
18 0 0 0 1347 1347 0.00 0.00 0.00 1.00 C 23 1.00
19 0 1 0 1111 1112 0.00 0.00 0.00 1.00 C 39 1.00
20 0 1220 0 0 1220 0.00 1.00 0.00 0.00 T 41 1.00
21 490 0 0 959 1449 0.34 0.00 0.00 0.66 C 28 0.66
22 0 572 0 1 573 0.00 1.00 0.00 0.00 T 25 1.00
23 1323 1 0 0 1324 1.00 0.00 0.00 0.00 A 40 1.00
24 1158 0 0 0 1158 1.00 0.00 0.00 0.00 A 36 1.00
25 0 0 0 560 560 0.00 0.00 0.00 1.00 C 31 1.00
26 248 0 0 733 981 0.25 0.00 0.00 0.75 C 30 0.75
27 0 570 0 1 571 0.00 1.00 0.00 0.00 T 33 1.00
28 0 251 0 0 251 0.00 1.00 0.00 0.00 T 10 1.00
29 854 0 0 0 854 1.00 0.00 0.00 0.00 A 25 1.00
30 888 0 0 170 1058 0.84 0.00 0.00 0.16 A 27 0.84
31 0 653 0 0 653 0.00 1.00 0.00 0.00 T 43 1.00
32 0 1001 172 0 1173 0.00 0.85 0.15 0.00 T 30 0.85
33 952 0 0 1 953 1.00 0.00 0.00 0.00 A 31 1.00
34 0 1 0 648 649 0.00 0.00 0.00 1.00 C 47 1.00
35 110 569 0 0 679 0.16 0.84 0.00 0.00 T 28 0.84
36 675 0 0 317 992 0.68 0.00 0.00 0.32 A 15 0.68
37 389 485 0 2 876 0.44 0.55 0.00 0.00 T 15 0.55
38 1013 2 0 1 1016 1.00 0.00 0.00 0.00 A 41 1.00
39 0 0 0 1266 1266 0.00 0.00 0.00 1.00 C 46 1.00
40 250 0 0 738 988 0.25 0.00 0.00 0.75 C 31 0.75
41 0 1 0 834 835 0.00 0.00 0.00 1.00 C 45 1.00
42 0 800 0 0 800 0.00 1.00 0.00 0.00 T 45 1.00
43 0 0 0 269 269 0.00 0.00 0.00 1.00 C 22 1.00
44 343 1144 0 0 1487 0.23 0.77 0.00 0.00 T 23 0.77
45 529 817 0 0 1346 0.39 0.61 0.00 0.00 T 19 0.61
46 1325 0 0 0 1325 1.00 0.00 0.00 0.00 A 20 1.00
47 0 420 370 0 790 0.00 0.53 0.47 0.00 T 6 0.53
48 540 574 0 0 1114 0.48 0.52 0.00 0.00 T 6 0.52
49 209 0 659 0 868 0.24 0.00 0.76 0.00 G 20 0.76
50 1158 0 0 0 1158 1.00 0.00 0.00 0.00 A 30 1.00
51 2 0 1152 650 1804 0.00 0.00 0.64 0.36 G 19 0.64
52 0 0 1371 449 1820 0.00 0.00 0.75 0.25 G 17 0.75
53 0 0 882 559 1441 0.00 0.00 0.61 0.39 G 11 0.61
54 0 693 0 560 1253 0.00 0.55 0.00 0.45 T 15 0.55
55 0 643 541 0 1184 0.00 0.54 0.46 0.00 T 15 0.54
56 1363 2 0 0 1365 1.00 0.00 0.00 0.00 A 21 1.00
57 1317 1 0 0 1318 1.00 0.00 0.00 0.00 A 23 1.00
58 307 936 0 0 1243 0.25 0.75 0.00 0.00 T 22 0.75
59 0 2742 0 0 2742 0.00 1.00 0.00 0.00 T 23 1.00
60 4916 7 0 344 5267 0.93 0.00 0.00 0.07 A 16 0.93
61 160 0 0 459 619 0.26 0.00 0.00 0.74 C 11 0.74
62 2 0 0 569 571 0.00 0.00 0.00 1.00 C 25 1.00
63 0 0 627 12 639 0.00 0.00 0.98 0.02 G 49 0.98
64 0 0 0 637 637 0.00 0.00 0.00 1.00 C 50 1.00
65 0 0 0 887 887 0.00 0.00 0.00 1.00 C 53 1.00
66 0 0 0 828 828 0.00 0.00 0.00 1.00 C 53 1.00
67 0 0 0 910 910 0.00 0.00 0.00 1.00 C 54 1.00
68 0 0 0 823 823 0.00 0.00 0.00 1.00 C 55 1.00
69 0 0 0 708 708 0.00 0.00 0.00 1.00 C 58 1.00
70 0 0 736 0 736 0.00 0.00 1.00 0.00 G 58 1.00
71 0 412 0 0 412 0.00 1.00 0.00 0.00 T 41 1.00
72 653 0 0 0 653 1.00 0.00 0.00 0.00 A 51 1.00
73 1 0 0 737 738 0.00 0.00 0.00 1.00 C 51 1.00
74 0 0 0 691 691 0.00 0.00 0.00 1.00 C 58 1.00
75 0 0 820 25 845 0.00 0.00 0.97 0.03 G 58 0.97
76 0 0 0 542 542 0.00 0.00 0.00 1.00 C 51 1.00
77 0 625 0 1 626 0.00 1.00 0.00 0.00 T 51 1.00
78 609 0 0 0 609 1.00 0.00 0.00 0.00 A 58 1.00
79 701 0 0 0 701 1.00 0.00 0.00 0.00 A 58 1.00
80 0 585 0 0 585 0.00 1.00 0.00 0.00 T 61 1.00
81 0 831 0 0 831 0.00 1.00 0.00 0.00 T 58 1.00
82 747 1 0 0 748 1.00 0.00 0.00 0.00 A 51 1.00
83 508 0 0 0 508 1.00 0.00 0.00 0.00 A 51 1.00
84 1 0 0 497 498 0.00 0.00 0.00 1.00 C 51 1.00
85 3 600 0 0 603 0.00 1.00 0.00 0.00 T 58 1.00
86 745 1 0 0 746 1.00 0.00 0.00 0.00 A 58 1.00
87 572 0 0 0 572 1.00 0.00 0.00 0.00 A 58 1.00
88 560 0 0 0 560 1.00 0.00 0.00 0.00 A 58 1.00
89 369 0 0 0 369 1.00 0.00 0.00 0.00 A 51 1.00
90 610 0 0 0 610 1.00 0.00 0.00 0.00 A 41 1.00
91 1 683 0 0 684 0.00 1.00 0.00 0.00 T 51 1.00
92 0 865 0 2 867 0.00 1.00 0.00 0.00 T 58 1.00
93 1 2 0 737 740 0.00 0.00 0.00 1.00 C 58 1.00
94 401 0 0 18 419 0.96 0.00 0.00 0.04 A 58 0.96
95 0 0 0 621 621 0.00 0.00 0.00 1.00 C 51 1.00
96 0 3 0 737 740 0.00 0.00 0.00 1.00 C 58 1.00
97 2 679 0 3 684 0.00 0.99 0.00 0.00 T 58 0.99
98 816 1 0 2 819 1.00 0.00 0.00 0.00 A 58 1.00
99 2 0 0 659 661 0.00 0.00 0.00 1.00 C 58 1.00
100 0 0 5 625 630 0.00 0.00 0.01 0.99 C 46 0.99
101 3 0 807 3 813 0.00 0.00 0.99 0.00 G 46 0.99
102 959 0 2 0 961 1.00 0.00 0.00 0.00 A 46 1.00
103 1 0 0 671 672 0.00 0.00 0.00 1.00 C 58 1.00
104 1 0 0 650 651 0.00 0.00 0.00 1.00 C 58 1.00
105 274 0 0 8 282 0.97 0.00 0.00 0.03 A 58 0.97
106 3 0 0 603 606 0.00 0.00 0.00 1.00 C 58 1.00
107 494 0 0 2 496 1.00 0.00 0.00 0.00 A 58 1.00
108 541 0 0 2 543 1.00 0.00 0.00 0.00 A 58 1.00
109 0 0 0 636 636 0.00 0.00 0.00 1.00 C 58 1.00
110 1 0 0 677 678 0.00 0.00 0.00 1.00 C 58 1.00
111 561 0 0 0 561 1.00 0.00 0.00 0.00 A 58 1.00
112 579 7 0 0 586 0.99 0.01 0.00 0.00 A 58 0.99
113 2 545 0 0 547 0.00 1.00 0.00 0.00 T 58 1.00
114 2 0 0 789 791 0.00 0.00 0.00 1.00 C 58 1.00
115 522 0 0 2 524 1.00 0.00 0.00 0.00 A 58 1.00
116 502 0 0 2 504 1.00 0.00 0.00 0.00 A 58 1.00
117 16 0 0 505 521 0.03 0.00 0.00 0.97 C 58 0.97
118 582 0 0 2 584 1.00 0.00 0.00 0.00 A 58 1.00
119 526 0 0 2 528 1.00 0.00 0.00 0.00 A 58 1.00
120 2 0 9 577 588 0.00 0.00 0.02 0.98 C 51 0.98
121 0 0 658 13 671 0.00 0.00 0.98 0.02 G 51 0.98
122 0 0 24 626 650 0.00 0.00 0.04 0.96 C 58 0.96
123 8 0 315 0 323 0.02 0.00 0.98 0.00 G 51 0.98
124 731 0 1 0 732 1.00 0.00 0.00 0.00 A 41 1.00
125 900 0 0 0 900 1.00 0.00 0.00 0.00 A 58 1.00
126 0 0 0 731 731 0.00 0.00 0.00 1.00 C 51 1.00
127 0 0 0 989 989 0.00 0.00 0.00 1.00 C 58 1.00
128 0 0 0 987 987 0.00 0.00 0.00 1.00 C 58 1.00
129 0 21 0 814 835 0.00 0.03 0.00 0.97 C 58 0.97
130 0 781 0 37 818 0.00 0.95 0.00 0.05 T 58 0.95
131 0 0 0 1065 1065 0.00 0.00 0.00 1.00 C 58 1.00
132 0 0 0 892 892 0.00 0.00 0.00 1.00 C 58 1.00
133 0 0 0 838 838 0.00 0.00 0.00 1.00 C 58 1.00
134 0 0 0 696 696 0.00 0.00 0.00 1.00 C 58 1.00
135 582 0 0 3 585 0.99 0.00 0.00 0.01 A 58 0.99
136 618 0 0 0 618 1.00 0.00 0.00 0.00 A 61 1.00
137 758 0 0 0 758 1.00 0.00 0.00 0.00 A 58 1.00
138 716 0 0 0 716 1.00 0.00 0.00 0.00 A 51 1.00
139 0 0 2 528 530 0.00 0.00 0.00 1.00 C 51 1.00
140 154 0 522 0 676 0.23 0.00 0.77 0.00 G 34 0.77
141 712 0 0 0 712 1.00 0.00 0.00 0.00 A 58 1.00
142 873 0 0 0 873 1.00 0.00 0.00 0.00 A 51 1.00
143 595 0 0 2 597 1.00 0.00 0.00 0.00 A 58 1.00
144 1 13 0 577 591 0.00 0.02 0.00 0.98 C 58 0.98
145 13 656 0 2 671 0.02 0.98 0.00 0.00 T 58 0.98
146 856 2 0 0 858 1.00 0.00 0.00 0.00 A 58 1.00
147 688 0 0 0 688 1.00 0.00 0.00 0.00 A 58 1.00
148 0 0 30 579 609 0.00 0.00 0.05 0.95 C 58 0.95
149 31 0 694 2 727 0.04 0.00 0.95 0.00 G 58 0.95
150 795 0 2 7 804 0.99 0.00 0.00 0.01 A 58 0.99
151 0 0 0 751 751 0.00 0.00 0.00 1.00 C 58 1.00
152 0 0 0 911 911 0.00 0.00 0.00 1.00 C 58 1.00
153 0 0 0 873 873 0.00 0.00 0.00 1.00 C 58 1.00
154 0 0 740 30 770 0.00 0.00 0.96 0.04 G 58 0.96
155 0 0 2 715 717 0.00 0.00 0.00 1.00 C 58 1.00
156 0 0 0 1039 1039 0.00 0.00 0.00 1.00 C 51 1.00
157 0 0 0 830 830 0.00 0.00 0.00 1.00 C 58 1.00
158 574 0 0 38 612 0.94 0.00 0.00 0.06 A 51 0.94
159 2 0 0 826 828 0.00 0.00 0.00 1.00 C 51 1.00
160 0 0 0 871 871 0.00 0.00 0.00 1.00 C 58 1.00
161 0 0 2 837 839 0.00 0.00 0.00 1.00 C 51 1.00
162 136 0 681 3 820 0.17 0.00 0.83 0.00 G 32 0.83
163 1078 0 0 3 1081 1.00 0.00 0.00 0.00 A 58 1.00
164 1 0 0 725 726 0.00 0.00 0.00 1.00 C 58 1.00
165 0 11 0 849 860 0.00 0.01 0.00 0.99 C 58 0.99
166 0 694 0 47 741 0.00 0.94 0.00 0.06 T 51 0.94
167 0 0 0 1006 1006 0.00 0.00 0.00 1.00 C 51 1.00
168 0 0 498 37 535 0.00 0.00 0.93 0.07 G 51 0.93
169 8 0 0 510 518 0.02 0.00 0.00 0.98 C 51 0.98
170 587 17 0 0 604 0.97 0.03 0.00 0.00 A 58 0.97
171 47 578 0 0 625 0.08 0.92 0.00 0.00 T 58 0.92
172 895 0 0 0 895 1.00 0.00 0.00 0.00 A 58 1.00
173 679 0 0 0 679 1.00 0.00 0.00 0.00 A 58 1.00
174 477 0 0 1 478 1.00 0.00 0.00 0.00 A 51 1.00
175 0 0 7 628 635 0.00 0.00 0.01 0.99 C 51 0.99
176 0 0 588 30 618 0.00 0.00 0.95 0.05 G 58 0.95
177 0 0 27 706 733 0.00 0.00 0.04 0.96 C 58 0.96
178 127 0 557 0 684 0.19 0.00 0.81 0.00 G 32 0.81
179 748 2 2 0 752 0.99 0.00 0.00 0.00 A 51 0.99
180 50 515 0 0 565 0.09 0.91 0.00 0.00 T 58 0.91
181 824 0 0 0 824 1.00 0.00 0.00 0.00 A 58 1.00
182 629 0 0 0 629 1.00 0.00 0.00 0.00 A 58 1.00
183 2 0 0 814 816 0.00 0.00 0.00 1.00 C 58 1.00
184 0 0 0 985 985 0.00 0.00 0.00 1.00 C 58 1.00
185 0 11 0 810 821 0.00 0.01 0.00 0.99 C 58 0.99
186 0 723 0 57 780 0.00 0.93 0.00 0.07 T 58 0.93
187 0 19 0 898 917 0.00 0.02 0.00 0.98 C 58 0.98
188 6 545 0 2 553 0.01 0.99 0.00 0.00 T 34 0.99
189 863 0 0 0 863 1.00 0.00 0.00 0.00 A 58 1.00
190 615 0 0 2 617 1.00 0.00 0.00 0.00 A 58 1.00
191 0 0 0 675 675 0.00 0.00 0.00 1.00 C 58 1.00
192 0 3 0 768 771 0.00 0.00 0.00 1.00 C 58 1.00
193 95 542 0 2 639 0.15 0.85 0.00 0.00 T 34 0.85
194 846 0 0 0 846 1.00 0.00 0.00 0.00 A 58 1.00
195 610 0 0 0 610 1.00 0.00 0.00 0.00 A 61 1.00
196 603 0 0 0 603 1.00 0.00 0.00 0.00 A 58 1.00
197 668 9 0 0 677 0.99 0.01 0.00 0.00 A 58 0.99
198 3 750 0 0 753 0.00 1.00 0.00 0.00 T 58 1.00
199 14 853 0 0 867 0.02 0.98 0.00 0.00 T 58 0.98
200 819 3 0 2 824 0.99 0.00 0.00 0.00 A 58 0.99
201 3 3 0 654 660 0.00 0.00 0.00 0.99 C 58 0.99
202 137 514 0 0 651 0.21 0.79 0.00 0.00 T 34 0.79
203 877 2 0 0 879 1.00 0.00 0.00 0.00 A 58 1.00
204 620 0 0 0 620 1.00 0.00 0.00 0.00 A 58 1.00
205 467 0 0 100 567 0.82 0.00 0.00 0.18 A 34 0.82
206 2 0 0 700 702 0.00 0.00 0.00 1.00 C 58 1.00
207 0 0 0 883 883 0.00 0.00 0.00 1.00 C 58 1.00
208 0 25 0 748 773 0.00 0.03 0.00 0.97 C 58 0.97
209 0 804 0 0 804 0.00 1.00 0.00 0.00 T 58 1.00
210 0 1014 0 0 1014 0.00 1.00 0.00 0.00 T 51 1.00
211 186 717 0 0 903 0.21 0.79 0.00 0.00 T 32 0.79
212 747 2 0 0 749 1.00 0.00 0.00 0.00 A 58 1.00
213 7 120 536 0 663 0.01 0.18 0.81 0.00 G 29 0.81
214 0 446 321 0 767 0.00 0.58 0.42 0.00 T 25 0.58
215 30 0 530 0 560 0.05 0.00 0.95 0.00 G 41 0.95
216 600 0 292 0 892 0.67 0.00 0.33 0.00 A 25 0.67
217 1 0 799 0 800 0.00 0.00 1.00 0.00 G 46 1.00
218 0 0 1115 0 1115 0.00 0.00 1.00 0.00 G 51 1.00
219 0 3 758 0 761 0.00 0.00 1.00 0.00 G 51 1.00
220 0 620 0 0 620 0.00 1.00 0.00 0.00 T 50 1.00
221 203 599 0 0 802 0.25 0.75 0.00 0.00 T 31 0.75
222 896 2 0 0 898 1.00 0.00 0.00 0.00 A 47 1.00

Alignments

Sequencing result #1

Sequencing result #1 is aligned on both sense and antisense bisulfite converted DNA sequences to determine the sequencing direction as forward or reverse.

Warning: Trimmed sequence from the sequencing result #1 was found with insufficient length or insufficient quality and will not be used.

Alignment as forward

Trimmed sequence of primary peaks from sequencing result #1 is aligned with bisulfite converted reference DNA sense sequence

Alignment as reverse

Trimmed sequence of primary peaks from sequencing result #1 is aligned with bisulfite converted reference DNA antisense sequence

Direction determination

Warning: Insufficient quality of trimmed sequence for direction determination.

Sequencing result #2

Sequencing result #2 is aligned on both sense and antisense bisulfite converted DNA sequences to determine the sequencing direction as forward or reverse.

Alignment as forward

Trimmed sequence of primary peaks from sequencing result #2 is aligned with bisulfite converted reference DNA sense sequence

## ########################################
## # Program: Biostrings (version 2.64.1), a Bioconductor package
## # Rundate: Sat Apr 29 18:12:21 2023
## ########################################
## #=======================================
## #
## # Aligned_sequences: 2
## # 1: P1
## # 2: S1
## # Matrix: NA
## # Gap_penalty: 14.0
## # Extend_penalty: 4.0
## #
## # Length: 8
## # Identity:       8/8 (100.0%)
## # Similarity:    NA/8 (NA%)
## # Gaps:           0/8 (0.0%)
## # Score: 15.85405
## #
## #
## #=======================================
## 
## P1                40 GAGGGTTA     47
##                      ||||||||
## S1                87 GAGGGTTA     94
## 
## 
## #---------------------------------------
## #---------------------------------------

Alignment as reverse

Trimmed sequence of primary peaks from sequencing result #2 is aligned with bisulfite converted reference DNA antisense sequence

## ########################################
## # Program: Biostrings (version 2.64.1), a Bioconductor package
## # Rundate: Sat Apr 29 18:12:21 2023
## ########################################
## #=======================================
## #
## # Aligned_sequences: 2
## # 1: P1
## # 2: S1
## # Matrix: NA
## # Gap_penalty: 14.0
## # Extend_penalty: 4.0
## #
## # Length: 146
## # Identity:     146/146 (100.0%)
## # Similarity:    NA/146 (NA%)
## # Gaps:           0/146 (0.0%)
## # Score: 289.336
## #
## #
## #=======================================
## 
## P1                51 ACCGCCCCCCGTACCGCTAA     70
##                      ||||||||||||||||||||
## S1               128 ACCGCCCCCCGTACCGCTAA    147
## 
## P1                71 TTAACTAAAAATTCACCTAC     90
##                      ||||||||||||||||||||
## S1               148 TTAACTAAAAATTCACCTAC    167
## 
## P1                91 CGACCACAACCAATCAACAA    110
##                      ||||||||||||||||||||
## S1               168 CGACCACAACCAATCAACAA    187
## 
## P1               111 CGCGAACCCCTCCCCAAAAC    130
##                      ||||||||||||||||||||
## S1               188 CGCGAACCCCTCCCCAAAAC    207
## 
## P1               131 GAAACTAACGACCCGCCCAC    150
##                      ||||||||||||||||||||
## S1               208 GAAACTAACGACCCGCCCAC    227
## 
## P1               151 CCGACCTCGCATAAACGCGA    170
##                      ||||||||||||||||||||
## S1               228 CCGACCTCGCATAAACGCGA    247
## 
## P1               171 TAACCCTCTAACCTAAAATT    190
##                      ||||||||||||||||||||
## S1               248 TAACCCTCTAACCTAAAATT    267
## 
## P1               191 ACTAAA    196
##                      ||||||
## S1               268 ACTAAA    273
## 
## 
## #---------------------------------------
## #---------------------------------------

Direction determination

Sequencing result #2 corresponds to reverse direction

Forward

No sequencing file provided for forward sequencing result.

To find nucleotides of reference DNA sequence positions on sequencing result, the trimmed sequence of primary peaks from forward sequencing results is aligned with bisulfite converted reference DNA sense sequence.

Alignment

Aligned sequences

Reverse

To find nucleotides of reference DNA sequence positions on sequencing result, the trimmed sequence of primary peaks from reverse sequencing results is aligned with bisulfite converted reference DNA antisense sequence.

Alignment

## ########################################
## # Program: Biostrings (version 2.64.1), a Bioconductor package
## # Rundate: Sat Apr 29 18:12:22 2023
## ########################################
## #=======================================
## #
## # Aligned_sequences: 2
## # 1: P1
## # 2: S1
## # Matrix: NA
## # Gap_penalty: 14.0
## # Extend_penalty: 4.0
## #
## # Length: 146
## # Identity:     146/146 (100.0%)
## # Similarity:    NA/146 (NA%)
## # Gaps:           0/146 (0.0%)
## # Score: 289.336
## #
## #
## #=======================================
## 
## P1                51 ACCGCCCCCCGTACCGCTAA     70
##                      ||||||||||||||||||||
## S1               128 ACCGCCCCCCGTACCGCTAA    147
## 
## P1                71 TTAACTAAAAATTCACCTAC     90
##                      ||||||||||||||||||||
## S1               148 TTAACTAAAAATTCACCTAC    167
## 
## P1                91 CGACCACAACCAATCAACAA    110
##                      ||||||||||||||||||||
## S1               168 CGACCACAACCAATCAACAA    187
## 
## P1               111 CGCGAACCCCTCCCCAAAAC    130
##                      ||||||||||||||||||||
## S1               188 CGCGAACCCCTCCCCAAAAC    207
## 
## P1               131 GAAACTAACGACCCGCCCAC    150
##                      ||||||||||||||||||||
## S1               208 GAAACTAACGACCCGCCCAC    227
## 
## P1               151 CCGACCTCGCATAAACGCGA    170
##                      ||||||||||||||||||||
## S1               228 CCGACCTCGCATAAACGCGA    247
## 
## P1               171 TAACCCTCTAACCTAAAATT    190
##                      ||||||||||||||||||||
## S1               248 TAACCCTCTAACCTAAAATT    267
## 
## P1               191 ACTAAA    196
##                      ||||||
## S1               268 ACTAAA    273
## 
## 
## #---------------------------------------
## #---------------------------------------

Aligned sequences

Aligned sequence from reverse sequencing result (Pattern P1):

Length: 146 bp 

## ACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAA

Aligned sequence from bisulfite converted reference DNA antisense sequence (Subject S1):

Length: 146 bp 

## ACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAA

Quality control

Summary

Thresholds Values
Minimum length of the aligned sequence : 30 bp
Minimum identity percentage of alignment : 75 %
Minimum of bisulfite conversion rate mean : 0.9
Direction Sequencing Length Identity Mismatch Indel in DNA reference Indel in sequencing Mean of conversion rates SD of conversion rates Quality Result
Reverse #2 146 100 0 0 0 1 0 Correct

No sequencing file provided for forward sequencing result.

Mismatch positions

Forward

Reverse

No mismatch positions in reverse alignment.

Insertions/deletions

Forward

Reverse

No insertions/deletions in reverse alignment.

Conversion rates

Combined

C number Bisulfite conversion rate Reverse
50 1.00
49 1.00
48 1.00
47 1.00
46 1.00
45 1.00
44 1.00
43 1.00
42 1.00
41 1.00
40 1.00
39 1.00
38 1.00
37 1.00
36 1.00
35 1.00
34 1.00
33 1.00
32 1.00
31 1.00
30 1.00
29 1.00
28 1.00
27 1.00
26 1.00
25 1.00
24 1.00
23 1.00
22 1.00
21 1.00
20 1.00

Forward

Reverse

C number Position in reference DNA Position in sequencing result (trimmed) Position in sequencing result (raw) A peak T peak G peak C peak Bisulfite conversion rate
50 146 69 78 609 0 0 0 1
49 150 73 82 747 1 0 0 1
48 151 74 83 508 0 0 0 1
47 154 77 86 745 1 0 0 1
46 156 79 88 560 0 0 0 1
45 157 80 89 369 0 0 0 1
44 158 81 90 610 0 0 0 1
43 166 89 98 816 1 0 2 1
42 170 93 102 959 0 2 0 1
41 176 99 108 541 0 0 2 1
40 184 107 116 502 0 0 2 1
39 187 110 119 526 0 0 2 1
38 192 115 124 731 0 1 0 1
37 204 127 136 618 0 0 0 1
36 205 128 137 758 0 0 0 1
35 206 129 138 716 0 0 0 1
34 209 132 141 712 0 0 0 1
33 211 134 143 595 0 0 2 1
32 214 137 146 856 2 0 0 1
31 218 141 150 795 0 2 7 1
30 231 154 163 1078 0 0 3 1
29 241 164 173 679 0 0 0 1
28 247 170 179 748 2 2 0 1
27 249 172 181 824 0 0 0 1
26 258 181 190 615 0 0 2 1
25 262 185 194 846 0 0 0 1
24 263 186 195 610 0 0 0 1
23 265 188 197 668 9 0 0 1
22 268 191 200 819 3 0 2 1
21 272 195 204 620 0 0 0 1
20 273 196 205 467 0 0 100 1

Maximum aligned sequence

The maximum aligned sequence corresponds to the maximum sequence covered by at least one correct sequencing.

Length of max aligned sequence : 146 bp
Coordinates of max aligned sequence : chr16:68771008-68771153

Maximum aligned sequence (on bisulfite converted sense sequence from the plus strand sequence) :

## TTTAGTAATTTTAGGTTAGAGGGTTATCGCGTTTATGCGAGGTCGGGTGGGCGGGTCGTTAGTTTCGTTTTGGGGAGGGGTTCGCGTTGTTGATTGGTTGTGGTCGGTAGGTGAATTTTTAGTTAATTAGCGGTACGGGGGGCGGT

Methylation

Combined

CG number Chromosome Start End Methylation Percentage Forward Methylation Percentage Reverse Methylation Percentage Average Methylation Percentage SD
17 chr16 68771150 68771151 NA 100.00 100.00 NA
16 chr16 68771143 68771144 NA 100.00 100.00 NA
15 chr16 68771138 68771139 NA 100.00 100.00 NA
14 chr16 68771112 68771113 NA 99.63 99.63 NA
13 chr16 68771092 68771093 NA 100.00 100.00 NA
12 chr16 68771090 68771091 NA 97.52 97.52 NA
11 chr16 68771073 68771074 NA 77.22 77.22 NA
10 chr16 68771064 68771065 NA 95.72 95.72 NA
9 chr16 68771059 68771060 NA 100.00 100.00 NA
8 chr16 68771051 68771052 NA 83.35 83.35 NA
7 chr16 68771045 68771046 NA 100.00 100.00 NA
6 chr16 68771037 68771038 NA 100.00 100.00 NA
5 chr16 68771035 68771036 NA 81.43 81.43 NA

Forward

No sequencing file provided for forward sequencing result.

Reverse

CG number Chromosome Start End G position in reference DNA G position in sequencing result (trimmed) G position in sequencing result (raw) A peak T peak G peak C peak Methylation Percentage
17 chr16 68771150 68771151 131 54 63 0 0 627 12 100.00
16 chr16 68771143 68771144 138 61 70 0 0 736 0 100.00
15 chr16 68771138 68771139 143 66 75 0 0 820 25 100.00
14 chr16 68771112 68771113 169 92 101 3 0 807 3 99.63
13 chr16 68771092 68771093 189 112 121 0 0 658 13 100.00
12 chr16 68771090 68771091 191 114 123 8 0 315 0 97.52
11 chr16 68771073 68771074 208 131 140 154 0 522 0 77.22
10 chr16 68771064 68771065 217 140 149 31 0 694 2 95.72
9 chr16 68771059 68771060 222 145 154 0 0 740 30 100.00
8 chr16 68771051 68771052 230 153 162 136 0 681 3 83.35
7 chr16 68771045 68771046 236 159 168 0 0 498 37 100.00
6 chr16 68771037 68771038 244 167 176 0 0 588 30 100.00
5 chr16 68771035 68771036 246 169 178 127 0 557 0 81.43

Individual methylation plot

Output data

Directories

Methylation data file preview

CG_nb chromosome start end meth_F meth_R meth_avg meth_sd collection group rep clone alg_coord_start alg_coord_end
17 chr16 68771150 68771151 NA 100.00 100.00 NA High methylated DNA 1 NA 68771008 68771153
16 chr16 68771143 68771144 NA 100.00 100.00 NA High methylated DNA 1 NA 68771008 68771153
15 chr16 68771138 68771139 NA 100.00 100.00 NA High methylated DNA 1 NA 68771008 68771153
14 chr16 68771112 68771113 NA 99.63 99.63 NA High methylated DNA 1 NA 68771008 68771153
13 chr16 68771092 68771093 NA 100.00 100.00 NA High methylated DNA 1 NA 68771008 68771153
12 chr16 68771090 68771091 NA 97.52 97.52 NA High methylated DNA 1 NA 68771008 68771153
11 chr16 68771073 68771074 NA 77.22 77.22 NA High methylated DNA 1 NA 68771008 68771153
10 chr16 68771064 68771065 NA 95.72 95.72 NA High methylated DNA 1 NA 68771008 68771153
9 chr16 68771059 68771060 NA 100.00 100.00 NA High methylated DNA 1 NA 68771008 68771153
8 chr16 68771051 68771052 NA 83.35 83.35 NA High methylated DNA 1 NA 68771008 68771153
7 chr16 68771045 68771046 NA 100.00 100.00 NA High methylated DNA 1 NA 68771008 68771153
6 chr16 68771037 68771038 NA 100.00 100.00 NA High methylated DNA 1 NA 68771008 68771153
5 chr16 68771035 68771036 NA 81.43 81.43 NA High methylated DNA 1 NA 68771008 68771153